atlannot package

Subpackages

• atlannot.ants package
  • Module contents
    • check_dtype_antspy()
    • register()
    • stack_2d_transforms()
    • transform()
• atlannot.atlas package
  • Submodules
    • atlannot.atlas.align module
      • get_misalignment()
      • specific_label_iou()
      • unfurl_regions()
      • warp()
  • Module contents
• atlannot.merge package
  • Submodules
    • atlannot.merge.coarse module
      • manual_relabel()
      • merge()
    • atlannot.merge.common module
      • atlas_remap()
      • descendants()
      • replace()
    • atlannot.merge.fine module
      • explore_voxel()
      • manual_relabel_1()
      • manual_relabel_2()
      • merge()
  • Module contents
• atlannot.merge_original package
  • Submodules
    • atlannot.merge_original.JSONread module
      • RegionData
    • atlannot.merge_original.coarse module
      • coarse_merge()
    • atlannot.merge_original.fine module
      • explore_voxel()
      • fine_merge()
  • Module contents
• atlannot.notebook package
  • Submodules
    • atlannot.notebook.util module
      • create_legend_handles()
      • image_grid()
      • print_misalignments()
    • atlannot.notebook.volume_viewer module
      • VolumeViewer
  • Module contents

Submodules

• atlannot.displacements module
  • deltas_to_dfs()
  • dfs_to_deltas()
  • load_dfs()
  • safe_dfs()
• atlannot.evaluation module
  • check_installed()
  • conditional_entropy()
  • entropy()
  • evaluate()
  • evaluate_region()
  • how_to_install_msg()
  • iou()
  • jaggedness()
  • warn_if_not_installed()
• atlannot.region_meta module
  • RegionMeta
    • RegionMeta.acronym()
    • RegionMeta.ancestors()
    • RegionMeta.children()
    • RegionMeta.color_map
    • RegionMeta.depth
    • RegionMeta.descendants()
    • RegionMeta.find_by_acronym()
    • RegionMeta.find_by_name()
    • RegionMeta.from_dict()
    • RegionMeta.ids_at_level()
    • RegionMeta.in_region_like()
    • RegionMeta.is_leaf()
    • RegionMeta.is_valid_id()
    • RegionMeta.load_json()
    • RegionMeta.name()
    • RegionMeta.parent()
    • RegionMeta.print_regions()
    • RegionMeta.size
    • RegionMeta.to_dict()
• atlannot.utils module
  • Remapper
    • Remapper.remap()
    • Remapper.remap_new_to_old()
    • Remapper.remap_old_to_new()
  • add_middle_line()
  • atlas_symmetry_score()
  • compose()
  • create_description()
  • edge_laplacian_thick()
  • edge_laplacian_thin()
  • edge_sobel()
  • image_convolution()
  • load_nrrd()
  • load_volume()
  • merge()
  • saving_results()
  • split_halfs()
  • stain_symmetry_score()
  • write_transform()

Module contents

The Atlas Annotation (atlannot) package.